Fix and extend CI testing #171
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| branches: | |
| - main | |
| jobs: | |
| Testing: | |
| runs-on: ${{ matrix.os }} | |
| continue-on-error: true | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ ubuntu-latest, macos-latest ] | |
| python-version: [ '3.9', '3.10' ] | |
| snakemake-version: [ '6', '7' ] | |
| include: | |
| - python-version: '3.8' | |
| snakemake-version: '7' | |
| - python-version: '3.9' | |
| snakemake-version: '7' | |
| - python-version: '3.10' | |
| snakemake-version: '7' | |
| - python-version: '3.11' | |
| snakemake-version: '7' | |
| - python-version: '3.11' | |
| snakemake-version: '8' | |
| - python-version: '3.11' | |
| snakemake-version: '8.0' | |
| - python-version: '3.11' | |
| snakemake-version: '8.1' | |
| - python-version: '3.11' | |
| snakemake-version: '8.2' | |
| - python-version: '3.11' | |
| snakemake-version: '8.3' | |
| - python-version: '3.11' | |
| snakemake-version: '8.4' | |
| - python-version: '3.11' | |
| snakemake-version: '8.5' | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| micromamba-version: '1.5.6-0' | |
| environment-name: test-env | |
| condarc: | | |
| channels: | |
| - conda-forge | |
| - bioconda | |
| - defaults | |
| create-args: >- | |
| python=${{ matrix.python-version }} | |
| snakemake-minimal=${{ matrix.snakemake-version }} | |
| mamba | |
| make | |
| init-shell: bash | |
| cache-environment: true | |
| post-cleanup: 'all' | |
| - name: Versions | |
| shell: bash -el {0} | |
| run: | | |
| micromamba activate test-env | |
| python -v | |
| snakemake -v | |
| - name: Make bigtest | |
| shell: bash -el {0} | |
| run: | | |
| micromamba activate test-env | |
| make bigtest |